Benchmarking and Adapting On-Device Large Language Models for Clinical Decision Support

Large language models (LLMs) have rapidly advanced in clinical decision-making, yet the deployment of proprietary systems is hindered by privacy concerns and reliance on cloud-based infrastructure. Open-source alternatives allow local inference but often require large model sizes that limit their use in resource-constrained clinical settings. Here, we benchmark two on-device LLMs, gpt-oss-20b and gpt-oss-120b, across three representative clinical tasks: general disease diagnosis, specialty-specific (ophthalmology) diagnosis and management, and simulation of human expert grading and evaluation. We compare their performance with state-of-the-art proprietary models (GPT-5 and o4-mini) and a leading open-source model (DeepSeek-R1), and we further evaluate the adaptability of on-device systems by fine-tuning gpt-oss-20b on general diagnostic data. Across tasks, gpt-oss models achieve performance comparable to or exceeding DeepSeek-R1 and o4-mini despite being substantially smaller. In addition, fine-tuning remarkably improves the diagnostic accuracy of gpt-oss-20b, enabling it to approach the performance of GPT-5. These findings highlight the potential of on-device LLMs to deliver accurate, adaptable, and privacy-preserving clinical decision support, offering a practical pathway for broader integration of LLMs into routine clinical practice.

BioReason: Incentivizing Multimodal Biological Reasoning within a DNA-LLM Model

Unlocking deep, interpretable biological reasoning from complex genomic data is a major AI challenge hindering scientific discovery. Current DNA foundation models, despite strong sequence representation, struggle with multi-step reasoning and lack inherent transparent, biologically intuitive explanations. We introduce BioReason, a pioneering architecture that, for the first time, deeply integrates a DNA foundation model with a Large Language Model (LLM). This novel connection enables the LLM to directly process and reason with genomic information as a fundamental input, fostering a new form of multimodal biological understanding. BioReason's sophisticated multi-step reasoning is developed through supervised fine-tuning and targeted reinforcement learning, guiding the system to generate logical, biologically coherent deductions. On biological reasoning benchmarks including KEGG-based disease pathway prediction - where accuracy improves from 88% to 97% - and variant effect prediction, BioReason demonstrates an average 15% performance gain over strong single-modality baselines. BioReason reasons over unseen biological entities and articulates decision-making through interpretable, step-by-step biological traces, offering a transformative approach for AI in biology that enables deeper mechanistic insights and accelerates testable hypothesis generation from genomic data. Data, code, and checkpoints are publicly available at https://github.com/bowang-lab/BioReason